Organism : Clostridium acetobutylicum | Module List :
Regulation information for CAC3508(Mouseover regulator name to see its description)
Motif information (de novo identified motifs for modules)
There are 4 motifs predicted.
|Motif Id||e-value||Consensus||Motif Logo|
Functional Enrichment for CAC3508
Module neighborhood information for CAC3508
|Gene||Common Name||Description||Module membership|
|CAC0125||dnaX||DNA-directed DNA polymerase, III chain (dnaX) (NCBI ptt file)||10, 356|
|CAC0247||CAC0247||Predicted permease (NCBI ptt file)||66, 356|
|CAC0361||kduD||2 deoxy-D-gluconate 3-dehydrogenase (NCBI ptt file)||65, 240|
|CAC0605||CAC0605||Predicted phosphatase (NCBI ptt file)||287, 356|
|CAC0719||CAC0719||Epoxide hydrolase, similar to eukaryotic (NCBI ptt file)||150, 356|
|CAC0720||CAC0720||Hypothetical protein (NCBI ptt file)||223, 240|
|CAC0762||CAC0762||Permease, probably tetracycline resistance protein (NCBI ptt file)||169, 240|
|CAC0923||CAC0923||Predicted membrane protein; CF_1 family (NCBI ptt file)||148, 240|
|CAC1028||CAC1028||Hydrolase of alpha/beta superfamily, possible membrane associated lipase (NCBI ptt file)||276, 356|
|CAC1057||CAC1057||Uncharcterized protein, shares conserved domain among different RHS family proteins and WAPA of B.subtilis (NCBI ptt file)||224, 240|
|CAC1330||CAC1330||Metal-dependent hydrolases of the beta-lactamase superfamily, possible sulfatase (NCBI ptt file)||287, 356|
|CAC1449||CAC1449||Hypothetical protein (NCBI ptt file)||239, 356|
|CAC1497||CAC1497||Uncharacterized protein, homolog of YCGL B.subtilis (NCBI ptt file)||216, 240|
|CAC1511||CAC1511||FNR-like catabolite gene activator (c-AMP binding domain) (NCBI ptt file)||38, 240|
|CAC1512||nirC||Formate/nitrite family of transporter (NCBI ptt file)||240, 320|
|CAC1513||asrA||Anaerobic sulfite reductase (Fe-S subunit) (NCBI ptt file)||208, 240|
|CAC1515||asrC||Anaerobic sulfite reduction protein C, reductase (NCBI ptt file)||111, 240|
|CAC1648||CAC1648||Hypothetical protein, CF-7 family (NCBI ptt file)||206, 240|
|CAC2362||thrS||Threonyl-tRNA synthetase (NCBI ptt file)||10, 356|
|CAC2455||CAC2455||Hypothetical protein, CF-13 family (NCBI ptt file)||202, 240|
|CAC2539||CAC2539||Predicted acetyltransferase (NCBI ptt file)||240, 265|
|CAC2552||CAC2552||Predicted transcriptional regulator CRO family (NCBI ptt file)||196, 356|
|CAC2553||CAC2553||Uncharacterized mebrane protein, YOAS B.subtilis ortholog (NCBI ptt file)||196, 356|
|CAC2589||CAC2589||Glycosyltransferase (NCBI ptt file)||169, 240|
|CAC2592||CAC2592||6-pyruvoyl-tetrahydropterin synthase related domain; conserved membrane protein (NCBI ptt file)||24, 240|
|CAC2723||CAC2723||Deacethylase/dipeptidase/desuccinylase family of Zn-dependent hydrolases (NCBI ptt file)||49, 356|
|CAC2742||CAC2742||Predicted membrane protein (NCBI ptt file)||206, 240|
|CAC2743||CAC2743||Predicted permease, YXIO B.subtilis ortholog (NCBI ptt file)||26, 240|
|CAC2832||CAC2832||PLP-dependent aminotransferase (NCBI ptt file)||261, 356|
|CAC3261||ada||Methylated DNA-protein cysteine methyltransferase (NCBI ptt file)||240, 265|
|CAC3301||gerKB||Spore germination protein GerKB, membrane protein (NCBI ptt file)||24, 240|
|CAC3335||CAC3335||Short-chain alcohol dehydrogenase family enzyme (NCBI ptt file)||212, 356|
|CAC3336||CAC3336||Predicted cAMP-binding domain, regulatory protein, diverged (NCBI ptt file)||212, 356|
|CAC3361||CAC3361||Transcriptional regulator, LysR family (NCBI ptt file)||150, 240|
|CAC3368||CAC3368||Predicted permease (NCBI ptt file)||148, 240|
|CAC3370||CAC3370||Predicted transcriptional regulator (NCBI ptt file)||150, 240|
|CAC3457||CAC3457||Predicted membrane protein (NCBI ptt file)||287, 356|
|CAC3474||CAC3474||Predicted MDR-type permease (NCBI ptt file)||108, 356|
|CAC3482||CAC3482||Predicted permease (NCBI ptt file)||240, 338|
|CAC3503||CAC3503||Nucleoside-diphosphate-sugar epimerase (NCBI ptt file)||83, 240|
|CAC3508||CAC3508||Predicted aminopeptidase (NCBI ptt file)||240, 356|
|CAC3509||CAC3509||Transcriptional regulator, MerR family (duplicated domains) (NCBI ptt file)||287, 356|
|CAC3578||fabH||3-oxoacyl-[acyl-carrier-protein] synthase III (NCBI ptt file)||20, 356|
|CAC3579||CAC3579||Transcriptional regulator, MarR/EmrR family (NCBI ptt file)||20, 356|
|CAC3663||CAC3663||Response regulator (CheY-like receiver domain and HTH-type DNA-binding domain) (NCBI ptt file)||202, 240|
|CAC3704||CAC3704||Hypothetical protein, CF-7 family (NCBI ptt file)||44, 356|
|CAC3712||CAC3712||Hypothetical protein (NCBI ptt file)||44, 356|
|CAC3730||soj||Chromosome partitioning MinD-family ATPase, SOJ (NCBI ptt file)||49, 356|
Gene Page Help
If the gene is associated with a module(s), its connection to given modules along with other members of that module are shown as network by using CytoscapeWeb. In this view, each green colored circular nodes represent module member genes, purple colored diamonds represent module motifs and red triangles represent regulators. Each node is connected to module (Bicluster) via edges. This representation provides quick overview of all genes, regulators and motifs for modules. It also allows one to see shared genes/motifs/regulators among diferent modules.
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Identity of gene members in a module may help to identify potential interactions between different functional modules. Therefore, neighbor genes that share the same module(s) with gene under consideration are shown here. For each memebr, gene name, description and modules that contain it are listed.
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CircVisOur circular module explorer is adapted from visquick originally developed by Dick Kreisberg of Ilya Shmulevich lab at ISB for The Cancer Genome Atlas. We use simplified version of visquick to display distribution of module members and their interactions across the genome. This view provides summary of regulation information for a gene. The main components are;
- 1. All genomic elements for the organism are represented as a circle and each element is separated by black tick marks. In this example chromosome and pDV represent main chromosome and plasmid for D. vulgaris Hildenborough, respectively.
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